1. In the master page, set the stack level of the page header to 'in front of content'. This control the z-order.
2. Set overflow of the page header to 'none'
3. Make sure the menu is inside the page header. Currently it is just on top of it.

You cannot 'buy' extensions, they are provided as an extra service for free (see notes: http://quickandeasywebbuilder.com/extensions.html). The standard tools should all be sorted in categories. I think the sorting is related to the system because on my system they are sorted. But I will investigate...

Did you upload the page to the same location, and with the same name? Did you clear your browser cache? Are there any errors in the publish log? Note that if publishing suddenly does not work anymore and you did not change anything then it is usually an issue on the server side. At first they will b...